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Proteomic Profiling and Analytical Chemistry

Proteomic Profiling and Analytical Chemistry
  • Author : Pawel Ciborowski,Jerzy Silberring
  • Publisher :Unknown
  • Release Date :2012-12-31
  • Total pages :264
  • ISBN : 9780444593917
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Summary : Proteomic Profiling and Analytical Chemistry helps scientists without a strong background in analytical chemistry to understand basic analytical principles and apply them to proteomics profiling. In most proteomic profiling experiments, liquid chromatography is used; this method is also used widely in analytical chemistry. This book bridges the gap between overly specialized courses and books in mass spectrometry, proteomics and analytical chemistry. It also helps researchers with an analytical chemistry background to break into the proteomics field. Proteomic Profiling and Analytical Chemistry focuses on practical applications for proteomic research helping readers to design better experiments and to more easily interpret, analyze and validate the resulting data. Experimental aspects such as sample preparation, protein extraction and precipitation, gel electrophoresis, microarrays, dynamics of fluorescent dyes, and more are all covered in detail. Covers the analytical consequences of protein and peptide modifications that may have a profound effect on how and what researchers actually measure Includes practical examples illustrating the importance of problems in quantitation and validation of biomarkers Helps in designing and executing proteomic experiments with sound analytics

Proteomic Profiling and Analytical Chemistry

Proteomic Profiling and Analytical Chemistry
  • Author : Pawel Ciborowski,Jerzy Silberring
  • Publisher :Unknown
  • Release Date :2016-03-02
  • Total pages :298
  • ISBN : 9780444636904
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Summary : Proteomic Profiling and Analytical Chemistry: The Crossroads, Second Edition helps scientists without a strong background in analytical chemistry to understand principles of the multistep proteomic experiment necessary for its successful completion. It also helps researchers who do have an analytical chemistry background to break into the proteomics field. Highlighting points of junction between proteomics and analytical chemistry, this resource links experimental design with analytical measurements, data analysis, and quality control. This targeted point of view will help both biologists and chemists to better understand all components of a complex proteomic study. The book provides detailed coverage of experimental aspects such as sample preparation, protein extraction and precipitation, gel electrophoresis, microarrays, dynamics of fluorescent dyes, and more. The key feature of this book is a direct link between multistep proteomic strategy and quality control routinely applied in analytical chemistry. This second edition features a new chapter on SWATH-MS, substantial updates to all chapters, including proteomic database search and analytical quantification, expanded discussion of post-hoc statistical tests, and additional content on validation in proteomics. Covers the analytical consequences of protein and peptide modifications that may have a profound effect on how and what researchers actually measure Includes practical examples illustrating the importance of problems in quantitation and validation of biomarkers Helps in designing and executing proteomic experiments with sound analytics

Mass Spectrometry-Based Chemical Proteomics

Mass Spectrometry-Based Chemical Proteomics
  • Author : W. Andy Tao,Ying Zhang
  • Publisher :Unknown
  • Release Date :2019-09-04
  • Total pages :432
  • ISBN : 9781118969557
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Summary : Emphasizing mass spectrometry, this book provides strategies and concepts for understanding and analyzing chemical proteomics, their functions, modifications, and interactions. Chapters cover technical advances and applications in drug discovery, from target identification to validation and potential treatments. Provides a basic overview of chemical proteomics, up-to-date concepts, analysis, and target validation Covers fundamentals and strategies, including proteome profiling and chemical probes Explains technical advances in the field and describes on shotgun proteomics, protein profiling, quantitative proteomics, peptide biosensors, and glycoprotein analysis Includes a wide variety of applications in drug discovery, from drug targets to the chemoproteomics analysis of natural products

Protein Misfolding

Protein Misfolding
  • Author : Rossen Donev
  • Publisher :Unknown
  • Release Date :2020-01-17
  • Total pages :450
  • ISBN : 9780128177501
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Summary : Protein Misfolding, Volume 118, covers the wide spectrum of diseases and disorders that are attributed to protein misfolding, including degenerative and neurodegenerative, cardiovascular, renal, glaucoma, cancer, cystic fibrosis, Gaucher's disease, and many others. Specific chapters cover Mass spectrometric approaches for profiling protein folding and stability, Biomembranes, a key player in protein misfolding, how Genetic and environmental factors interact to disrupt proteostasis and trigger protein misfolding diseases, Formation of oligomers and large amorphous aggregates by intrinsically disordered proteins, Protein misfolding in ER stress with applications to cardiovascular and renal disease, and much more. Integrates methods for studying protein misfolding, factors that trigger this process and its role in a wide spectrum of diseases and disorders Contains timely chapters written by well-renowned authorities in their field Provides data that is well supported by a number of high quality illustrations, figures and tables, and targets a very wide audience of specialists, researchers and students

Reactive Drug Metabolites

Reactive Drug Metabolites
  • Author : Amit S. Kalgutkar,Deepak Dalvie,R. Scott Obach,Dennis A. Smith
  • Publisher :Unknown
  • Release Date :2012-09-06
  • Total pages :402
  • ISBN : 9783527655762
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Summary : Closing a gap in the scientifi c literature, this first comprehensive introduction to the topic is based on current best practice in one of the largest pharmaceutical companies worldwide. The first chapters trace the development of our understanding of drug metabolite toxicity, covering basic concepts and techniques in the process, while the second part details chemical toxicophores that are prone to reactive metabolite formation. This section also reviews the various drug-metabolizing enzymes that can participate in catalyzing reactive metabolite formation, including a discussion of the structure-toxicity relationships for drugs. Two chapters are dedicated to the currently hot topics of herbal constituents and IADRs. The next part covers current strategies and approaches to evaluate the reactive metabolite potential of new drug candidates, both by predictive and by bioanalytical methods. There then follows an in-depth analysis of the toxicological potential of the top 200 prescription drugs, illustrating the power and the limits of the toxicophore concept, backed by numerous case studies. Finally, a risk-benefi t approach to managing the toxicity risk of reactive metabolite-prone drugs is presented. Since the authors carefully develop the knowledge needed, from fundamental considerations to current industry standards, no degree in pharmacology is required to read this book, making it perfect for medicinal chemists without in-depth pharmacology training.

Identifying Microbes by Mass Spectrometry Proteomics

Identifying Microbes by Mass Spectrometry Proteomics
  • Author : Charles H. Wick
  • Publisher :Unknown
  • Release Date :2013-09-10
  • Total pages :289
  • ISBN : 9781466504967
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Summary : All microbes, including bacteria, viruses, and fungi, can be classified and identified by matching a few peptides known to be unique to each organism. Identifying Microbes by Mass Spectrometry Proteomics describes ways to identify microorganisms using powerful new techniques combining hardware and software and yielding highly accurate methods for detection, identification, and classification of microbes. This straightforward technology can be used to detect unknown and unsequenced microorganisms as well as microbes in complex environmental samples. This book reviews various mass analyzers used for detection and describes ionization methods frequently used for analysis of microbial constituents, a necessary step in the preparation of mass spectrometry (MS) samples. The text also discusses diverse processing methods, which are used to analyze MS files for matching mass spectral profiles, and examines protein and nucleic acid sequence-based methods capable of classification and identification of microbial agents. The book also covers sample collection methods and specific sample preparation techniques. The text addresses using computer software and bioinformatics approaches for data mining to discriminate microbes using mass spectrometry proteomics (MSP). It also discusses historical pattern recognition-based methods and other approaches such as analysis of pyrolysis products, chemical ionization (CI) of fatty acid methyl esters, and MALDI-MS. The text contains examples of the application of the MSP technique for microbe detection and includes a survey of suitable and commercially available MS-based platforms. Successful applications include the identification of unknown microbes in honey bees associated with colony collapse disorder and the analysis of virus strains from the 2009 influenza pandemic. The final chapter outlines future trends in these groundbreaking uses of MS techniques, which are fast, not limited by sample type, and show potential in answering complex environmental questions.

Technologies to Enable Autonomous Detection for BioWatch

Technologies to Enable Autonomous Detection for BioWatch
  • Author : National Research Council,Institute of Medicine,Board on Life Sciences,Board on Health Sciences Policy
  • Publisher :Unknown
  • Release Date :2013-12-31
  • Total pages :260
  • ISBN : 9780309292542
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Summary : The BioWatch program, funded and overseen by the Department of Homeland Security (DHS), has three main elements--sampling, analysis, and response--each coordinated by different agencies. The Environmental Protection Agency maintains the sampling component, the sensors that collect airborne particles. The Centers for Disease Control and Prevention coordinates analysis and laboratory testing of the samples, though testing is actually carried out in state and local public health laboratories. Local jurisdictions are responsible for the public health response to positive findings. The Federal Bureau of Investigation is designated as the lead agency for the law enforcement response if a bioterrorism event is detected. In 2003 DHS deployed the first generation of BioWatch air samplers. The current version of this technology, referred to as Generation 2.0, requires daily manual collection and testing of air filters from each monitor. DHS has also considered newer automated technologies (Generation 2.5 and Generation 3.0) which have the potential to produce results more quickly, at a lower cost, and for a greater number of threat agents. Technologies to Enable Autonomous Detection for BioWatch is the summary of a workshop hosted jointly by the Institute of Medicine and the National Research Council in June 2013 to explore alternative cost-effective systems that would meet the requirements for a BioWatch Generation 3.0 autonomous detection system, or autonomous detector, for aerosolized agents . The workshop discussions and presentations focused on examination of the use of four classes of technologies--nucleic acid signatures, protein signatures, genomic sequencing, and mass spectrometry--that could reach Technology Readiness Level (TRL) 6-plus in which the technology has been validated and is ready to be tested in a relevant environment over three different tiers of temporal timeframes: those technologies that could be TRL 6-plus ready as part of an integrated system by 2016, those that are likely to be ready in the period 2016 to 2020, and those are not likely to be ready until after 2020. Technologies to Enable Autonomous Detection for BioWatch discusses the history of the BioWatch program, the role of public health officials and laboratorians in the interpretation of BioWatch data and the information that is needed from a system for effective decision making, and the current state of the art of four families of technology for the BioWatch program. This report explores how the technologies discussed might be strategically combined or deployed to optimize their contributions to an effective environmental detection capability.

Sample Preparation in Biological Mass Spectrometry

Sample Preparation in Biological Mass Spectrometry
  • Author : Alexander R. Ivanov,Alexander V. Lazarev
  • Publisher :Unknown
  • Release Date :2011-06-15
  • Total pages :1089
  • ISBN : 9400708289
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Summary : The aim of this book is to provide the researcher with important sample preparation strategies in a wide variety of analyte molecules, specimens, methods, and biological applications requiring mass spectrometric analysis as a detection end-point. In this volume we have compiled the contributions from several laboratories which are employing mass spectrometry for biological analysis. With the latest inventions and introduction of highly sophisticated mass spectrometry equipment sample preparation becomes an extremely important bottleneck of biomedical analysis. We have a goal of giving the reader several successful examples of sample preparation, development and optimization, leading to the success in analytical steps and proper conclusions made at the end of the day. This book is structured as a compilation of contributed chapters ranging from protocols to research articles and reviews. The main philosophy of this volume is that sample preparation methods have to be optimized and validated for every project, for every sample type and for every downstream analytical technique.

Activity-Based Protein Profiling

Activity-Based Protein Profiling
  • Author : Benjamin F. Cravatt,Ku-Lung Hsu,Eranthie Weerapana
  • Publisher :Unknown
  • Release Date :2019-02-23
  • Total pages :417
  • ISBN : 9783030111434
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Summary : This volume provides a collection of contemporary perspectives on using activity-based protein profiling (ABPP) for biological discoveries in protein science, microbiology, and immunology. A common theme throughout is the special utility of ABPP to interrogate protein function and small-molecule interactions on a global scale in native biological systems. Each chapter showcases distinct advantages of ABPP applied to diverse protein classes and biological systems. As such, the book offers readers valuable insights into the basic principles of ABPP technology and how to apply this approach to biological questions ranging from the study of post-translational modifications to targeting bacterial effectors in host-pathogen interactions.

Experimental Studies of the Correlation Between the Messenger RNA and Protein Expression Profiles in Escherichia Coli Expressing RhsA Elements

Experimental Studies of the Correlation Between the Messenger RNA and Protein Expression Profiles in Escherichia Coli Expressing RhsA Elements
  • Author : Kunal Aggarwal
  • Publisher :Unknown
  • Release Date :2007
  • Total pages :452
  • ISBN : CORNELL:31924095875088
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Summary : This study also presents data analysis strategies for data collected using relatively new isobaric-tagging based shotgun proteomics technique and compares the consistency of protein quantitation obtained using this technique with that obtained using two-dimensional electrophoresis. This work also identifies seven new candidate non-coding RNA transcripts using a novel approach incorporating genomic, transcriptomic and proteomic data.

Searching for Biomakers for Diagnosis and Early Detection of Lung Transplant Chronic Rejection

Searching for Biomakers for Diagnosis and Early Detection of Lung Transplant Chronic Rejection
  • Author : Yan Zhang
  • Publisher :Unknown
  • Release Date :2006
  • Total pages :624
  • ISBN : MINN:31951P01026009B
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Summary :

Proteomic and Metabolomic Approaches to Biomarker Discovery

Proteomic and Metabolomic Approaches to Biomarker Discovery
  • Author : Haleem J Issaq,Timothy D. Veenstra
  • Publisher :Unknown
  • Release Date :2013-05-20
  • Total pages :488
  • ISBN : 9780123947956
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Summary : Proteomic and Metabolomic Approaches to Biomarker Discovery demonstrates how to leverage biomarkers to improve accuracy and reduce errors in research. Disease biomarker discovery is one of the most vibrant and important areas of research today, as the identification of reliable biomarkers has an enormous impact on disease diagnosis, selection of treatment regimens, and therapeutic monitoring. Various techniques are used in the biomarker discovery process, including techniques used in proteomics, the study of the proteins that make up an organism, and metabolomics, the study of chemical fingerprints created from cellular processes. Proteomic and Metabolomic Approaches to Biomarker Discovery is the only publication that covers techniques from both proteomics and metabolomics and includes all steps involved in biomarker discovery, from study design to study execution. The book describes methods, and presents a standard operating procedure for sample selection, preparation, and storage, as well as data analysis and modeling. This new standard effectively eliminates the differing methodologies used in studies and creates a unified approach. Readers will learn the advantages and disadvantages of the various techniques discussed, as well as potential difficulties inherent to all steps in the biomarker discovery process. A vital resource for biochemists, biologists, analytical chemists, bioanalytical chemists, clinical and medical technicians, researchers in pharmaceuticals, and graduate students, Proteomic and Metabolomic Approaches to Biomarker Discovery provides the information needed to reduce clinical error in the execution of research. Describes the use of biomarkers to reduce clinical errors in research Includes techniques from a range of biomarker discoveries Covers all steps involved in biomarker discovery, from study design to study execution

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics, 8 Volume Set

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics, 8 Volume Set
  • Author : Michael J. Dunn,Lynn B. Jorde,Peter F. R. Little,Shankar Subramaniam
  • Publisher :Unknown
  • Release Date :2005-11-11
  • Total pages :4096
  • ISBN : 0470849746
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Summary : Available in print and online, this unique reference brings together all four fields of genetics, genomics, proteomics, and bioinformatics to meet your dynamic research requirements. It brings together the latest concepts in these vibrant areas and ensures a truly multidisciplinary approach. Topics include genetic variation and evolution, epigenetics, the human genome, expression profiling, proteome families, structural proteomics, gene finding/gene structure, protein function and annotation, and more. The work incorporates a vast amount of topical information, profiles cutting-edge techniques, and presents the very latest findings from an international team of over five hundred contributors. With articles for both students and more experienced scientists, this is a key reference source for everyone. Contains more than 450 articles covering all aspects of genomics, proteomics, bioinformatics and related technologies Includes a glossary containing over 550 clear and concise definitions "I am pleased to recommend it heartily as a essential reference tool…should remain the definitive work…for many years to come." THE CHEMICAL EDUCATOR “Jorde…and co-editors have done a remarkable job in coordinating this information, distilling it into a package that is both easy to navigate and over-flowing in discovery." ELECTRIC REVIEW

Applications in Forensic Proteomics

Applications in Forensic Proteomics
  • Author : Eric D. Merkley
  • Publisher :Unknown
  • Release Date :2020-10-09
  • Total pages :248
  • ISBN : 0841236496
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Summary : Introduction to forensic proteomics -- A proteomics tutorial -- Proteomic sample preparation techniques : toward forensic proteomic applications -- NextGen serology : leveraging mass spectrometry for protein-based human body fluid identification -- Informatics approaches to forensic body fluid identification by proteomic mass spectrometry -- Fingermarks as a new proteomic specimen : state of the art and perspective of in situ proteomics -- Human identification using genetically variant peptides in biological forensic evidence -- Proteomics in the analysis of forensic, archaeological, and paleontological bone -- Proteomics for microbial forensics -- ISO 17025 accreditation of method-based mass spectrometry for bioforensic analyses -- Unambiguous identification of ricin and abrin with advanced mass spectrometric assays -- Challenges in the development of reference materials for protein toxins -- The statistical defensibility of forensic proteomics.

Annotating Proteomic Mass Spectrometry Data for Qualitative and Quantitative Experiments

Annotating Proteomic Mass Spectrometry Data for Qualitative and Quantitative Experiments
  • Author : Sean J. McIlwain
  • Publisher :Unknown
  • Release Date :2008
  • Total pages :166
  • ISBN : WISC:89100588631
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Summary :

Characterization and Improvement of Two-dimensional Gel Electrophoresis

Characterization and Improvement of Two-dimensional Gel Electrophoresis
  • Author : Christina M. Bondy
  • Publisher :Unknown
  • Release Date :2005
  • Total pages :261
  • ISBN : WISC:89090406174
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Summary :

Proteome Analysis

Proteome Analysis
  • Author : David W Speicher
  • Publisher :Unknown
  • Release Date :2004-05-18
  • Total pages :394
  • ISBN : 9780080515304
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Summary : This book explores the current status of proteomics, an exciting new discipline, which is less than 10 years old. This new field has rapidly grown into a major commercial and research enterprise with great prospects for dramatically advancing our knowledge of basic biological and disease processes. The contributors to this book are an international panel of proteomics experts, who review and discuss the current status of specific technologies and approaches. Proteomics represents an exciting new way to pursue biological and biomedical science at an unprecedented pace. Proteomics takes a broad, comprehensive, systematic approach to understanding biology that is generally unbiased and not dependent upon existing knowledge. The major components of proteomics from basic discovery using a range of alternative analytical methods to discovery validation and use for clinical applications are discussed. State-of-the-art protein profiling methods include high resolution two-dimensional gels, two-dimensional differential in-gel electrophoresis, LC-MS and LC-MS/MS using accurate mass tags, and protein identifications of proteins from gels using mass spectrometry methods are discussed in depth. Other chapters describe comprehensive characterization of proteomes using electrophoretic prefractionation and analyses of sub-proteomes based on specific posttranslational modifications including the phospho-proteome, the glyco-proteome, and nitrated proteins. These conventional proteome analysis chapters are complemented by discussion of emerging technologies and approaches such as affinity based biosensor proteomics as well as the use of protein microarrays, microfluidics and nanotechnology. Strategies for improving throughput by automation are also discussed. Additional chapters address the application of current proteome techniques to clinical problems and the availability of protein expression library resources for proteome studies. · Authored by international experts in the field · Covers a wide range of topics including 2-D gels, global proteomics using accurate mass tags, global proteomics using electrophoretic prefractionation, microfluidics, and nanotechnology · Includes state-of-the-art protein profiling methods, and emerging technologies

Proteomic Profiling of Laryngeal Muscle

Proteomic Profiling of Laryngeal Muscle
  • Author : Nathan V. Welham
  • Publisher :Unknown
  • Release Date :2006
  • Total pages :120
  • ISBN : WISC:89091698944
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Summary :

Proteomics and Peptidomics

Proteomics and Peptidomics
  • Author : Gyorgy Marko-Varga
  • Publisher :Unknown
  • Release Date :2005
  • Total pages :632
  • ISBN : 9780444518101
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Summary : Proteomics and peptidomics is the detailed understanding of the role that proteins and peptides play in health and disease and is a necessary compliment to genetic analysis. The functional expression analysis of both proteins and peptides plays a central role in modern drug discovery as well as drug development, and is also a key research area in systems biology.Proteomics and Peptidomics captures the width as well as the depth within the area and exemplifies the variety as well as the traditional basis of analytical chemistry that is needed in order to move forward in expression analysis studies. As a fast emerging field, it gives and overview of parts within the field combined with highly specialized and dedicated topics that are intended to compliment each other.

Analytical Chemistry

Analytical Chemistry
  • Author : Gary D. Christian,Purnendu K. Dasgupta,Kevin A. Schug
  • Publisher :Unknown
  • Release Date :2013-10-07
  • Total pages :848
  • ISBN : 9780470887578
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Summary : The 7th Edition of Gary Christian's Analytical Chemistry focuses on more in-depth coverage and information about Quantitative Analysis (aka Analytical Chemistry) and related fields. The content builds upon previous editions with more enhanced content that deals with principles and techniques of quantitative analysis with more examples of analytical techniques drawn from areas such as clinical chemistry, life sciences, air and water pollution, and industrial analyses.

Protein Mass Spectrometry

Protein Mass Spectrometry
  • Author : Julian Whitelegge
  • Publisher :Unknown
  • Release Date :2009
  • Total pages :552
  • ISBN : STANFORD:36105210605007
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Summary : This book is designed to be a central text for young graduate students interested in mass spectrometry as it relates to the study of protein structure and function as well as proteomics. It is a definite must-have work for: - libraries at academic institutions with Master and Graduate programs in biochemistry, molecular biology, structural biology and proteomics - individual laboratories with interests covering these areas - libraries and individual laboratories in the pharmaceutical and biotechnology industries. *Serves as an essential reference to those working in the field *Incorporates the contributions of prominent experts *Features comprehensive coverage and a logical structure